PXD061660

PXD061660 is an original dataset announced via ProteomeXchange.

Title	Quantitative Readout of Methionine Residue Solvent Accessibility in E. coli cells Using Radiolytic Hydroxyl Radical Labeling and Mass Spectrometry
Description	Reactive oxygen species play a crucial role in cellular processes, but their effects on protein structure and function in vivo remain challenging to study. Here, we used synchrotron-based X-ray footprinting to probe protein structure in live E. coli, using quantitative LC-coupled mass spectrometry of methionine oxidation (MSox) with X-ray dose as a variable. A label-free proteomic analysis identified 2104 proteins from E. coli, with 465 proteins exhibiting MSox modifications distributed across multiple cellular compartments. Changes in MSox modification with increasing X-ray dose revealed a correlation between rates of modification and solvent-accessible surface area in vivo for selected proteins, providing a direct probe of protein structure and its conformational plasticity in the cell.
HostingRepository	PRIDE
AnnounceDate	2025-04-10
AnnouncementXML	Submission_2025-04-09_17:51:54.366.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Erik Farquhar
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2025-03-10 11:23:11	ID requested
⏵ 1	2025-04-09 17:51:54	announced

10.1016/J.BBRC.2025.151745;

submitter keyword: E. coli,X-ray footprinting, covalent labeling, methionine sulfoxide

Mark R.
contact affiliation	Department of Nutrition, Center for Proteomics and Bioinformatics, School of Medicine, Case Western Reserve University, Cleveland, Ohio, USA; Case Center for Synchrotron Biosciences, Brookhaven National Laboratory, Upton, New York, USA
contact email	mrc16@case.edu
lab head
Erik Farquhar
contact affiliation	Case Western Reserve University
contact email	erf42@case.edu
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2025/04/PXD061660

PRIDE project URI

• PRIDE
  1. PXD061660
     1. Label: PRIDE project
     2. Name: Quantitative Readout of Methionine Residue Solvent Accessibility in E. coli cells Using Radiolytic Hydroxyl Radical Labeling and Mass Spectrometry